From Proteopedia
(Difference between revisions)
proteopedia linkproteopedia link
|
|
| Line 1: |
Line 1: |
| - | [[Image:1mfj.gif|left|200px]] | + | {{Seed}} |
| | + | [[Image:1mfj.png|left|200px]] |
| | | | |
| | <!-- | | <!-- |
| Line 9: |
Line 10: |
| | {{STRUCTURE_1mfj| PDB=1mfj | SCENE= }} | | {{STRUCTURE_1mfj| PDB=1mfj | SCENE= }} |
| | | | |
| - | '''3' Stem-Loop from Human U4 SNRNA'''
| + | ===3' Stem-Loop from Human U4 SNRNA=== |
| | | | |
| | | | |
| - | ==Overview==
| + | <!-- |
| - | The NMR structure of the 3' stem-loop (3'SL) from human U4 snRNA was determined to gain insight into the structural basis for conservation of this stem-loop sequence from vertebrates. 3'SL sequences from human, rat, mouse and chicken U4 snRNA each consist of a 7 bp stem capped by a UACG tetraloop. No high resolution structure has previously been reported for a UACG tetraloop. The UACG tetraloop portion of the 3'SL was especially well defined by the NMR data, with a total of 92 NOE-derived restraints (about 15 per residue), including 48 inter-residue restraints (about 8 per residue) for the tetraloop and closing C-G base pair. Distance restraints were derived from NOESY spectra using MARDIGRAS with random error analysis. Refinement of the 20mer RNA hairpin structure was carried out using the programs DYANA and miniCarlo. In the UACG tetraloop, U and G formed a base pair stabilized by two hydrogen bonds, one between the 2'-hydroxyl proton of U and carbonyl oxygen of G, another between the imino proton of G and carbonyl oxygen O2 of U. In addition, the amino group of C formed a hydrogen bond with the phosphate oxygen of A. G adopted a syn orientation about the glycosidic bond, while the sugar puckers of A and C were either C2'-endo or flexible. The conformation of the UACG tetraloop was, overall, similar to that previously reported for UUCG tetraloops, another member of the UNCG class of tetraloops. The presence of an A, rather than a U, at the variable position, however, presents a distinct surface for interaction of the 3'SL tetraloop with either RNA or protein residues that may stabilize interactions important for active spliceosome formation. Such tertiary interactions may explain the conservation of the UACG tetraloop motif in 3'SL sequences from U4 snRNA in vertebrates. | + | The line below this paragraph, {{ABSTRACT_PUBMED_12384583}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 12384583 is the PubMed ID number. |
| | + | --> |
| | + | {{ABSTRACT_PUBMED_12384583}} |
| | | | |
| | ==About this Structure== | | ==About this Structure== |
| - | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MFJ OCA]. | + | Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MFJ OCA]. |
| | | | |
| | ==Reference== | | ==Reference== |
| Line 29: |
Line 33: |
| | [[Category: U4 small nuclear rna]] | | [[Category: U4 small nuclear rna]] |
| | [[Category: Uacg tetraloop]] | | [[Category: Uacg tetraloop]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 00:58:12 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 23:51:26 2008'' |
Revision as of 20:51, 2 July 2008
Template:STRUCTURE 1mfj
3' Stem-Loop from Human U4 SNRNA
Template:ABSTRACT PUBMED 12384583
About this Structure
Full experimental information is available from OCA.
Reference
NMR structure of the 3' stem-loop from human U4 snRNA., Comolli LR, Ulyanov NB, Soto AM, Marky LA, James TL, Gmeiner WH, Nucleic Acids Res. 2002 Oct 15;30(20):4371-9. PMID:12384583
Page seeded by OCA on Wed Jul 2 23:51:26 2008
